Transcript 758 | MetamORF

Transcript

ID CARD

MetamORF ID

758

ENST00000369592

Name

SMNDC1-201

Strand

Biotype

protein_coding

Start-end positions

110294062-110304697

CDS Start-stop positions

110294150-110303587

CDS Relative positions

Sequences

Transcript sequence

TCC ...

Genome browsers

UCSC

Gene

HGNC:16900

Aliases

ENSG00000119953,
HGNC:16900, NCBI:10285, OFF:SMNDC1,
SMNDC1, SMNR, SPF30,
TDRD16C

Chr 10

ORFs

8 ORFs

MetamORF ORF ID The MetamORF ID of the ORF. This is an unique ID referring to the ORF.	ORF lenght The genomic length of the ORF (in bp). This length is defined as the sum of the lengths of each exon constituting the ORF (thus excluding its eventual introns) and includes both the start and the stop codons.	Nucleic sequence The nucleic sequence of the ORF.	Amino acid sequence The amino acid sequence of the ORF.	Identification The method of identification used to identify the ORF. MetamORF currently integrates data from three main type of identification methods: bioinformatic predictions, ribosome profiling experiments and mass spectrometry experiments (either proteomics or proteogenomics). See the data sources section of the advances documentation for more information about this.	Start codon The start codon sequence of the ORF.	Kozak context The Kozak context computed by our algorithm for the ORF on the transcript. See the Kozak contexts section of the advanced documentation for more details regarding the nomenclature we use.	Exp. count The number of original datasets that identifed the ORF on the transcript.	Data sources The data sources in which the ORF has been identified. Click on the button to display all the original IDs in a pop-up. See the data sources section of the advanced documentation for more details regarding the information related to the data sources and the original ORF IDs.	ORF annotations A comma-separated list of the annotations computed by our algorithm for the ORF on the transcript. See the section dedicated to ORF annotations in the advanced documentation for more details regarding the nomenclature we use.	Cell types A comma-separated list of the cell types in which the ORF has already been identified on the transcript.
202	39	ATG ...	MES ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Brain_tumor, HEK293, HeLa, HFF
760	42	GTG ...	VKM ...	Ribo-seq	GTG		10	sORFs_org_Human	Alternative InCDS Overlapping sORF	BJ, HAP1, HEK293, HFF, LCL, MDA-MB-231, RPE-1, U2OS
1719692	33	ATG ...	MAT ...	Ribo-seq	ATG	strong	1	Johnstone2016	Alternative InCDS Overlapping sORF	Brain_tumor, HEK293, HeLa, HFF
3304033	717	ATG ...	MSE ...	Ribo-seq	ATG		1	Johnstone2016	CDS	Brain_tumor, HEK293, HeLa, HFF
631654	57	ATG ...	MKK ...	Ribo-seq	ATG	weak	1	Johnstone2016	Alternative InCDS Overlapping sORF	Brain_tumor, HEK293, HeLa, HFF
3014838	33	TTG ...	LWR ...	Ribo-seq	TTG		1	sORFs_org_Human	Alternative Overlapping sORF Upstream	MM1S
757	36	ATG ...	MDS ...	Ribo-seq	ATG		9	sORFs_org_Human Johnstone2016	Alternative InCDS Overlapping sORF	BJ, Brain_tumor, HEK293, HEK293T, HeLa, HFF, LCL, MDA-MB-231, RPE-1, U2OS
2305547	33	GTG ...	VAT ...	Ribo-seq	GTG		3	sORFs_org_Human	InCDS Overlapping sORF	hES, HFF, MDA-MB-231

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